Back to the "Multiple platform build/check report" A  B [C] D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 3.2: CHECK report for chroGPS on moscato1

This page was generated on 2016-04-23 10:18:53 -0700 (Sat, 23 Apr 2016).

Package 173/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
chroGPS 1.14.0
Oscar Reina
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/chroGPS
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: chroGPS
Version: 1.14.0
Command: rm -rf chroGPS.buildbin-libdir chroGPS.Rcheck && mkdir chroGPS.buildbin-libdir chroGPS.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=chroGPS.buildbin-libdir chroGPS_1.14.0.tar.gz >chroGPS.Rcheck\00install.out 2>&1 && cp chroGPS.Rcheck\00install.out chroGPS-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=chroGPS.buildbin-libdir --install="check:chroGPS-install.out" --force-multiarch --no-vignettes --timings chroGPS_1.14.0.tar.gz
StartedAt: 2016-04-23 00:40:21 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 00:44:38 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 257.1 seconds
RetCode: 0
Status:  OK  
CheckDir: chroGPS.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf chroGPS.buildbin-libdir chroGPS.Rcheck && mkdir chroGPS.buildbin-libdir chroGPS.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=chroGPS.buildbin-libdir chroGPS_1.14.0.tar.gz >chroGPS.Rcheck\00install.out 2>&1 && cp chroGPS.Rcheck\00install.out chroGPS-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=chroGPS.buildbin-libdir --install="check:chroGPS-install.out" --force-multiarch --no-vignettes --timings chroGPS_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/chroGPS.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'chroGPS/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'chroGPS' version '1.14.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'chroGPS' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Missing or unexported object: 'changepoint::cpt.method'
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
chisqdist : <anonymous> : <anonymous>: no visible global function
  definition for 'Rle'
chisqdist2: no visible global function definition for 'mclapply'
contour2dDP: no visible binding for global variable 'state'
gps2xgmml: no visible global function definition for 'col2hex'
uniqueCount: no visible binding for global variable 'u'
xgmml2d: no visible global function definition for 'xmlOutputDOM'
xgmml2d: no visible global function definition for 'saveXML'
xgmml3d: no visible global function definition for 'xmlOutputDOM'
xgmml3d: no visible global function definition for 'saveXML'
gps2xgmml,mds: no visible global function definition for 'col2hex'
plot,mds-ANY : .local: no visible global function definition for
  'plot3d'
plot,mds-ANY : .local: no visible global function definition for
  'text3d'
plot,mds-ANY : .local: no visible global function definition for
  'spheres3d'
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [9s] OK
** running examples for arch 'x64' ... [12s] OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'gplots'
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  'D:/biocbld/bbs-3.2-bioc/meat/chroGPS.Rcheck/00check.log'
for details.


chroGPS.Rcheck/00install.out:


install for i386

* installing *source* package 'chroGPS' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'chroGPS' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'chroGPS' as chroGPS_1.14.0.zip
* DONE (chroGPS)

chroGPS.Rcheck/examples_i386/chroGPS-Ex.timings:

nameusersystemelapsed
addVar000
adjustPeaks000
boostMDS000
clusGPS-class000
clusGPS000
distGPS-class000
distGPS0.050.000.04
domainDist000
geneSetGPS0.020.000.02
getURL000
gff2RDList000
gps2xgmml000
mds-class000
mds0.010.000.02
mergeClusters000
procrustesAdj2.510.223.03
profileClusters000
s20.630.000.63
splitDistGPS-class0.010.000.01

chroGPS.Rcheck/examples_x64/chroGPS-Ex.timings:

nameusersystemelapsed
addVar000
adjustPeaks000
boostMDS0.020.000.01
clusGPS-class000
clusGPS000
distGPS-class000
distGPS0.060.000.06
domainDist000
geneSetGPS000
getURL000
gff2RDList000
gps2xgmml000
mds-class000
mds0.020.000.02
mergeClusters000
procrustesAdj3.280.203.79
profileClusters000
s20.990.031.03
splitDistGPS-class0.020.000.02